Hi Theresa,
You can use our free Discovery Studio Visualizer:
http://accelrys.com/products/discovery-studio/visualization-download.php
You can select the region of choice (in your case the transmembrane domain) and create a surface around it (Structure -> Surface -> Add). Then in the Molecular Data Table's Surface Tab (View -> Data Table), you can find values for the Surface Area as well as Volume.
Let me know if you have any trouble with this.
Disclaimer: I work for Accelrys.
Cheers,
Francisco
Sr. Product Manager
Accelrys.com
-----Original Message-----
From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of Theresa Hsu
Sent: Thursday, September 06, 2012 12:59 AM
To: [log in to unmask]
Subject: [ccp4bb] Protein volume
Dear all
I have two membrane protein structures. Is there any tool to calculte the volume of transmembrane domain and solublle domain separately for comparison?
Thank you.
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